Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 150 of 250
Found at i:48463372 original size:26 final size:26
Alignment explanation
Indices: 48463343--48463450 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
48463333 TGGTACAAAT
48463343 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48463369 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48463395 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48463421 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48463447 TGAT
1 TGAT
48463451 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48465481 original size:137 final size:137
Alignment explanation
Indices: 48465235--48465521 Score: 493
Period size: 137 Copynumber: 2.1 Consensus size: 137
48465225 GAGTAGTCTC
48465235 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
** *
48465300 TGTTATCTGAATAAGGGGCTAAGTTCCGGCTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
48465365 ACTGTTA
131 ACTGTTA
48465372 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * * *
48465437 TGTTATTTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
48465502 ACTGTTA
131 ACTGTTA
**
48465509 CCTGAATGGGCTT
1 CCCAAATGGGCTT
48465522 AGGCCCAATA
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 141 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
ACTGTTA
Found at i:48466947 original size:22 final size:22
Alignment explanation
Indices: 48466916--48466961 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
48466906 CTAAGACTGA
* *
48466916 TCGTGTTGGCTTCCTCCCATTC
1 TCGTGGTGGCTTCCTCCAATTC
48466938 TCGTGGTGGCTTCCTCCAATTC
1 TCGTGGTGGCTTCCTCCAATTC
48466960 TC
1 TC
48466962 ACAATTGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.07, C:0.35, G:0.20, T:0.39
Consensus pattern (22 bp):
TCGTGGTGGCTTCCTCCAATTC
Found at i:48475372 original size:27 final size:27
Alignment explanation
Indices: 48475260--48475397 Score: 98
Period size: 27 Copynumber: 5.1 Consensus size: 27
48475250 AAAGTCTATT
* * *
48475260 AAGACAATAAACACGGGGTAGTCCACT
1 AAGACAGTAAACACGAGGTAGTCCACC
* * **
48475287 AGGACAGTAAACATGAGGTAGTCCATT
1 AAGACAGTAAACACGAGGTAGTCCACC
* * *
48475314 AAGATAGCT-AACACGAGGTAGTCTATC
1 AAGACAG-TAAACACGAGGTAGTCCACC
* * *
48475341 GAGACAGTAAACACGGGGTAGTCCGCC
1 AAGACAGTAAACACGAGGTAGTCCACC
* * * **
48475368 AAGACAGAAAACTCAAGAAAGTCCACC
1 AAGACAGTAAACACGAGGTAGTCCACC
48475395 AAG
1 AAG
48475398 GTGTAAAACA
Statistics
Matches: 85, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (27 bp):
AAGACAGTAAACACGAGGTAGTCCACC
Found at i:48494063 original size:43 final size:43
Alignment explanation
Indices: 48494010--48494094 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
48494000 TAATCATTAC
* * *
48494010 AATTAGGGACTCAAATCTAATCTGGGCCCAACCTTTTGTGAAA
1 AATTACGGACTCAAATCTAACCCGGGCCCAACCTTTTGTGAAA
*
48494053 AATTACGGACTCGAATCTAACCCGGGCCCAACCTTTTGTGAA
1 AATTACGGACTCAAATCTAACCCGGGCCCAACCTTTTGTGAA
48494095 GAATATGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
AATTACGGACTCAAATCTAACCCGGGCCCAACCTTTTGTGAAA
Found at i:48496282 original size:39 final size:39
Alignment explanation
Indices: 48496234--48496313 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
48496224 GTTTTCATTA
48496234 TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
1 TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
*
48496273 TGAACGTTGCATGCATCTACCAGTTGATTGTTTGTTTTC
1 TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
48496312 TG
1 TG
48496314 TCTTTCTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.42
Consensus pattern (39 bp):
TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
Found at i:48506499 original size:15 final size:16
Alignment explanation
Indices: 48506471--48506501 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
48506461 TAACATGTAT
48506471 TATATTTCTAAAAATA
1 TATATTTCTAAAAATA
48506487 TATATTT-TAAAAATA
1 TATATTTCTAAAAATA
48506502 AAATACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATTTCTAAAAATA
Found at i:48507979 original size:21 final size:24
Alignment explanation
Indices: 48507932--48507979 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
48507922 CATTCAAGAT
* *
48507932 AAAATAATATTATAAAACTCTTTA
1 AAAATAATATTATAAAACTATTCA
48507956 AAAATAATA-TAT-AAAC-ATTCA
1 AAAATAATATTATAAAACTATTCA
48507977 AAA
1 AAA
48507980 TATATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 4 0.18
23 3 0.14
24 9 0.41
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAATATTATAAAACTATTCA
Found at i:48508233 original size:23 final size:23
Alignment explanation
Indices: 48508167--48508233 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
48508157 TATAAGAAAA
*
48508167 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
*
48508187 AGTATATAAACAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
48508210 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
48508233 A
1 A
48508234 GTAGAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 6 0.16
23 9 0.24
24 6 0.16
25 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:48508240 original size:17 final size:15
Alignment explanation
Indices: 48508200--48508245 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
48508190 ATATAAACAG
*
48508200 AAATAAAAATATAAT
1 AAATAGAAATATAAT
48508215 AAATAGAAATATAAT
1 AAATAGAAATATAAT
48508230 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
48508246 ATGGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:48509299 original size:32 final size:29
Alignment explanation
Indices: 48509213--48509302 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 29
48509203 AAAAAAAAAT
48509213 TATATTTTTTGATTTTTTGAATTTTTATTTG
1 TATA-TTTTTGATTTTTT-AATTTTTATTTG
*
48509244 TATATTTTGGATTTTTAAATAATTTTTATCTTG
1 TATATTTTTGATTTTT---TAATTTTTAT-TTG
*
48509277 ATATATTTTTAATTTTGTTAATTTTT
1 -TATATTTTTGATTTT-TTAATTTTT
48509303 GAAATTATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 11 0.22
31 4 0.08
32 17 0.34
33 4 0.08
34 13 0.26
35 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.67
Consensus pattern (29 bp):
TATATTTTTGATTTTTTAATTTTTATTTG
Found at i:48511320 original size:20 final size:22
Alignment explanation
Indices: 48511289--48511336 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
48511279 ATAATTACGT
48511289 TTATTTTCTTTAAATTAA-GAA
1 TTATTTTCTTTAAATTAATGAA
* *
48511310 TTATTTT-TTTAATTTAATGTA
1 TTATTTTCTTTAAATTAATGAA
48511331 TTATTT
1 TTATTT
48511337 ATTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATTTTCTTTAAATTAATGAA
Found at i:48513586 original size:26 final size:26
Alignment explanation
Indices: 48513557--48513664 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
48513547 TGGTACAAAT
48513557 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48513583 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48513609 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48513635 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48513661 TGAT
1 TGAT
48513665 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48517878 original size:21 final size:22
Alignment explanation
Indices: 48517845--48517888 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
48517835 AATTAAAATG
*
48517845 CATTATTTTATATAA-TTCATA
1 CATTATTTCATATAATTTCATA
*
48517866 CATTGTTTCATATAATTTCATA
1 CATTATTTCATATAATTTCATA
48517888 C
1 C
48517889 TATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
CATTATTTCATATAATTTCATA
Found at i:48520093 original size:17 final size:17
Alignment explanation
Indices: 48520071--48520103 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48520061 ATATACAATA
48520071 TATTCACAATTTACTTG
1 TATTCACAATTTACTTG
*
48520088 TATTCACACTTTACTT
1 TATTCACAATTTACTT
48520104 CTTAACAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.48
Consensus pattern (17 bp):
TATTCACAATTTACTTG
Found at i:48520214 original size:19 final size:18
Alignment explanation
Indices: 48520190--48520229 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
48520180 TGGTTCATGT
48520190 TTTCAA-TCTCATATCTCAA
1 TTTCAATTCTCA-AT-TCAA
48520209 TTTCAATTCTCAATTCAA
1 TTTCAATTCTCAATTCAA
48520227 TTT
1 TTT
48520230 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAATTCTCAATTCAA
Found at i:48520473 original size:23 final size:23
Alignment explanation
Indices: 48520392--48520477 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
48520382 CTGATCAGAG
*
48520392 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
48520414 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
48520434 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
48520457 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
48520478 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:48520878 original size:15 final size:15
Alignment explanation
Indices: 48520854--48520891 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
48520844 ATATATATAT
*
48520854 TATAATTTCAATCAA
1 TATAAATTCAATCAA
48520869 TATAAATTCAATCAA
1 TATAAATTCAATCAA
48520884 TATAAATT
1 TATAAATT
48520892 TGATAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:48521040 original size:10 final size:10
Alignment explanation
Indices: 48521025--48521053 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
48521015 ACAAACCGTA
48521025 TTTTCCGAGC
1 TTTTCCGAGC
48521035 TTTTCCGAGC
1 TTTTCCGAGC
48521045 TTTTCCGAG
1 TTTTCCGAG
48521054 TCGGCTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.21, T:0.41
Consensus pattern (10 bp):
TTTTCCGAGC
Found at i:48521641 original size:18 final size:17
Alignment explanation
Indices: 48521618--48521663 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
48521608 CTGTTTCTTC
48521618 TCTGTTTCGTTTCCACAT
1 TCTGTTTC-TTTCCACAT
*
48521636 TCTGTTTCTTT--TCAT
1 TCTGTTTCTTTCCACAT
48521651 TCTGTTTCTTTCC
1 TCTGTTTCTTTCC
48521664 TTTATTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 14 0.56
17 3 0.12
18 8 0.32
ACGTcount: A:0.07, C:0.26, G:0.09, T:0.59
Consensus pattern (17 bp):
TCTGTTTCTTTCCACAT
Found at i:48521857 original size:18 final size:17
Alignment explanation
Indices: 48521835--48521889 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
48521825 ATATCAATTT
48521835 AAATAATAATAAAAATA
1 AAATAATAATAAAAATA
*
48521852 ACAATAATAATTAAATATA
1 A-AATAATAA-TAAAAATA
48521871 AAACT-ATAATAAATAATA
1 AAA-TAATAATAAA-AATA
48521889 A
1 A
48521890 TAATTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 5 0.16
18 18 0.56
19 9 0.28
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAATAATAAAAATA
Found at i:48524660 original size:55 final size:54
Alignment explanation
Indices: 48524588--48524718 Score: 185
Period size: 55 Copynumber: 2.4 Consensus size: 54
48524578 CCCTTAGCCT
* * *
48524588 GTGTGCAACACTAACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACTC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGG-CTACCC
*
48524643 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCTCGTGTGGCTACCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCTACCC
*
48524697 GTGTACTAA-ATTGAC-TTAAAAC
1 GTGTAC-AACACTGACTTTAAAAC
48524719 TTTAAGTGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
53 7 0.10
54 16 0.23
55 47 0.67
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (54 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCTACCC
Found at i:48527577 original size:23 final size:22
Alignment explanation
Indices: 48527525--48527577 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48527515 TCCACGTCTT
*
48527525 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48527547 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48527570 TTTCTTTT
1 TTTCTTTT
48527578 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48530743 original size:29 final size:29
Alignment explanation
Indices: 48530701--48530756 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
48530691 AAATTCACAT
* *
48530701 CTTTGGTAAATGACCATGTTGCCCCTAGA
1 CTTTGGCAAATGACCATGTTACCCCTAGA
*
48530730 CTTTGGCAAATGACCATTTTACCCCTA
1 CTTTGGCAAATGACCATGTTACCCCTA
48530757 TGCTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CTTTGGCAAATGACCATGTTACCCCTAGA
Found at i:48531820 original size:31 final size:29
Alignment explanation
Indices: 48531785--48531846 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
48531775 TGTGAAGTGT
*
48531785 AAGACCATAGC-AGAGTTATGGCATAGTGTGA
1 AAGACCATAACTAG-GTTATGGCAT--TGTGA
48531816 AAGACCATAACTAGGTTATGGCATTGTGA
1 AAGACCATAACTAGGTTATGGCATTGTGA
48531845 AA
1 AA
48531847 TTGAACGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 7 0.24
31 20 0.69
32 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
AAGACCATAACTAGGTTATGGCATTGTGA
Found at i:48532432 original size:2 final size:2
Alignment explanation
Indices: 48532427--48532453 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48532417 TATATATATA
48532427 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
48532454 TTAATAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:48536886 original size:27 final size:25
Alignment explanation
Indices: 48536807--48536904 Score: 151
Period size: 25 Copynumber: 3.8 Consensus size: 25
48536797 CCTCTTTAAT
**
48536807 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
48536832 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
48536857 AACTGGGGCAAAAGCCCTTTTTCAATA
1 AACTGGGGC-AAAGCCC-TTTTCAATA
48536884 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
48536905 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
25 32 0.47
26 12 0.18
27 24 0.35
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:48540906 original size:58 final size:58
Alignment explanation
Indices: 48540838--48541029 Score: 181
Period size: 58 Copynumber: 3.3 Consensus size: 58
48540828 TAAACTTGCA
* ** * *
48540838 AAAATTTTGAAAGATAATCTGTTAGGGATGTGAAC-CTGCGGGCTATTTTATACTTACG
1 AAAATTTTGAAAGATAATCAGTTAGGGATGTGAACTC-GCAAGCTATTTCATACTTAAG
* * *
48540896 AAAATCTTGAAAGATAATCAGCTAGGGATGTGAATTCGCAAGCTATTTCATACTTAAG
1 AAAATTTTGAAAGATAATCAGTTAGGGATGTGAACTCGCAAGCTATTTCATACTTAAG
* * * * * * ** **
48540954 AAAATTTTGAAAGGTAATACAGTTGGGGATGTTAATTTGTAAGCTATGTT-GGACTTGCG
1 AAAATTTTGAAAGATAAT-CAGTTAGGGATGTGAACTCGCAAGCTAT-TTCATACTTAAG
48541013 AAAATTTTGAAAGATAA
1 AAAATTTTGAAAGATAA
48541030 ACAAGTGAGA
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
58 64 0.58
59 45 0.41
60 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (58 bp):
AAAATTTTGAAAGATAATCAGTTAGGGATGTGAACTCGCAAGCTATTTCATACTTAAG
Found at i:48541161 original size:69 final size:69
Alignment explanation
Indices: 48541047--48541906 Score: 359
Period size: 69 Copynumber: 12.6 Consensus size: 69
48541037 AGAGTTTTCA
* * ** * * * * * **
48541047 ACTCTCACTAACTATGTTGGAAGCTGCAGCTCTCAGTCGGTAAGCCTTAGTATGATAGTTAGGAG
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
48541112 CTTT
66 CTTT
* * * * * *
48541116 ACTCTCATTAACTATGTTGGATGCTGCGGCTCTTTGCCTACAAGCCTTAATAT-AAAACTGGGAG
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
48541180 CTTT
66 CTTT
* ** * * *
48541184 GCTCTTGCTAATTGTGTTGGAAGCTGCGGCTC-TT-CATTGGCAAGCCTTAGTATGACAACT-GA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGC-CT-GCAAGCCTTAATATGACAACTAG-
48541246 GAGCTTT
63 GAGCTTT
* * ** * * * **
48541253 GCTCTCACTAACTGTGTTGGAGGCTGTAGCTCTTCGCCTGTAAACCTTAATATGACAGTTTA-GA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACA-ACTAGGA
48541317 GCTTT
65 GCTTT
* * * * * * * *
48541322 AATCTCGCTAATTGTGTTGGAGGTTGCGGCTCTTTACCTACAAGCCTTAATATGAAAACT-GGAA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGG-A
48541386 G-TCTT
65 GCT-TT
* * ** * ** * ** * * ** *
48541391 ACTCTTACTAACTATGTTGGAAATTGTGGCTCTTCACCGGTGAGCATTAGTATGACAGTTGGGAG
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
48541456 C--T
66 CTTT
* * * * * * * *
48541458 --T-T-GCTAACTGTGTTGGATGCTGCGACT-TTTCGCGTACAAGCATTAATATAACAGCTAGGA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTT-GCCTGCAAGCCTTAATATGACAACTAGGA
**
48541518 TTTTT
65 GCTTT
** * * * * * * *
48541523 TGTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTACAAGCCTTAATATGATAGCT-GAAA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAG-GA
48541587 GCTTT
65 GCTTT
** * * * * * * * * *** * * * *
48541592 GGTTTCATTAATTGTGTTGGAGGATACAGCTCTTCGCCTTTGAGCCTTAATATAACAATTTGAAG
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
48541657 CTTT
66 CTTT
* ** * * ** *
48541661 TCTCTCGGTAACTGTGTTGGAGGTTGCGGCTCTTCACCTGCAAGCCTTAATATGACAACT-GAAA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAG-GA
48541725 GCTTT
65 GCTTT
* * * ** ** * * *
48541730 ACTCTCACTGACTGTGTTGGAGGTTGCAAC-CTTCACCTGCAAGCCTTAATAAGACAACTGGGAA
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
48541794 CTTT
66 CTTT
* * * * * * * * * ** * *
48541798 GCTCTCGCTAACTATGTTGGAGGATGTGACTCTTCGCTTGTGAGCCTTAATATGACAGCTAAGAG
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
48541863 CTTT
66 CTTT
* * * * * * *
48541867 GCTCTCGCTAGCTATGTTGGAGGCTACAGCTCTTTGCCTG
1 ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTG
48541907 AAAATCTTAA
Statistics
Matches: 599, Mismatches: 166, Indels: 52
0.73 0.20 0.06
Matches are distributed among these distances:
62 2 0.00
63 37 0.06
64 1 0.00
65 2 0.00
66 1 0.00
67 5 0.01
68 111 0.19
69 431 0.72
70 8 0.01
71 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (69 bp):
ACTCTCACTAACTGTGTTGGAAGCTGCGGCTCTTTGCCTGCAAGCCTTAATATGACAACTAGGAG
CTTT
Found at i:48541376 original size:138 final size:138
Alignment explanation
Indices: 48541109--48541900 Score: 541
Period size: 138 Copynumber: 5.8 Consensus size: 138
48541099 TGATAGTTAG
* * * * * * ** * *
48541109 GAGCTTTACTCTCATTAACTATGTTGGATGCTGCGGCTCTTTGCCTACAAGCCTTAATAT-AAAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* * * * * * *
48541173 CTGGGAGCTTTGCTCTTGCTAATTGTGTTGGAAGCTGCGGCTCTTCA-TTGGCAAGCCTTAGTAT
66 CTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTTCACCT-ACAAGCCTTAATAT
48541237 GACAACTGA
130 GACAACTGA
* *
48541246 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTAGCTCTTCGCCTGTAAACCTTAATATGACAG
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* * * * *
48541311 TTTAGAGCTTTAATCTCGCTAATTGTGTTGGAGGTTGCGGCTCTTTACCTACAAGCCTTAATATG
66 CTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATG
*
48541376 AAAACTG-
131 ACAACTGA
* * * *** * * * * *
48541383 GAAG-TCTTACTCTTACTAACTATGTTGGAAATTGTGGCTCTTCACCGGTGAGCATTAGTATGAC
1 G-AGCT-TTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGAC
* * * * * * * * *
48541447 AGTTGGGAGC--T--T-T-GCTAACTGTGTTGGATGCTGCGACTTTTCGCGTACAAGCATTAATA
64 AGCTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATA
* *
48541506 TAACAGCT-A
129 TGACAACTGA
** ** *
48541515 GGATTTTTTG-TCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTACAAGCCTTAATATGAT
1 -GA-GCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGAC
* ** * ** * * * * ***
48541579 AGCTGAAAGCTTTGGTTTCATTAATTGTGTTGGAGGATACAGCTCTTCGCCTTTGAGCCTTAATA
64 AGCTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATA
* *
48541644 TAACAATTTGA
129 TGACAA-CTGA
* ** * * * * *
48541655 -AGCTTTTCTCTCGGTAACTGTGTTGGAGGTTGCGGCTCTTCACCTGCAAGCCTTAATATGACAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* * * * * ** * *
48541719 CTGAAAGCTTTACTCTCACTGACTGTGTTGGAGGTTGCAAC-CTTCACCTGCAAGCCTTAATAAG
66 CTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATG
*
48541783 ACAACTGG
131 ACAACTGA
* * * * * * *
48541791 GAACTTTGCTCTCGCTAACTATGTTGGAGGATGTGACTCTTCGCTTGTGAGCCTTAATATGACAG
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* * ** * * *
48541856 CTAAGAGCTTTGCTCTCGCTAGCTATGTTGGAGGCTACAGCTCTT
66 CTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTT
48541901 TGCCTGAAAA
Statistics
Matches: 500, Mismatches: 136, Indels: 37
0.74 0.20 0.05
Matches are distributed among these distances:
132 91 0.18
133 4 0.01
134 3 0.01
136 4 0.01
137 160 0.32
138 235 0.47
139 2 0.00
140 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (138 bp):
GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
CTGAGAGCTTTACTCTCGCTAATTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATG
ACAACTGA
Found at i:48546204 original size:42 final size:41
Alignment explanation
Indices: 48546093--48546217 Score: 126
Period size: 41 Copynumber: 3.0 Consensus size: 41
48546083 GTGTCAATGC
** *
48546093 CATATCCCAGACATGGTCTTACATGGGACCTCATATCGATG
1 CATATCCCAGACATGGTCTTACATGAAATCTCATATCGATG
* * * * *
48546134 CATGTCCTAGACATGATCTTACACGAAATCTCATATC-AGCG
1 CATATCCCAGACATGGTCTTACATGAAATCTCATATCGA-TG
* * *
48546175 TCATATCCCAGATATGGTCTTACATGAAATCACATACCGATG
1 -CATATCCCAGACATGGTCTTACATGAAATCTCATATCGATG
48546217 C
1 C
48546218 TGATGCCATA
Statistics
Matches: 65, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
40 1 0.02
41 32 0.49
42 31 0.48
43 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
CATATCCCAGACATGGTCTTACATGAAATCTCATATCGATG
Found at i:48546257 original size:48 final size:49
Alignment explanation
Indices: 48546186--48546299 Score: 117
Period size: 48 Copynumber: 2.4 Consensus size: 49
48546176 CATATCCCAG
** * **
48546186 ATATGGTCTTACA-TGAAATCACATACCGATGCTGATGCCATAT-CATAA
1 ATATGGTCTTACACTGGCATCACATACCAACACTGATGCCATATACA-AA
* * *
48546234 ATATGGTCTTACACTGGCA-CACATATCAACACTGATGCCATGTACAGA
1 ATATGGTCTTACACTGGCATCACATACCAACACTGATGCCATATACAAA
*
48546282 ACATGGTCTTACACTGGC
1 ATATGGTCTTACACTGGC
48546300 TCTCATCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (49 bp):
ATATGGTCTTACACTGGCATCACATACCAACACTGATGCCATATACAAA
Found at i:48546334 original size:49 final size:48
Alignment explanation
Indices: 48546236--48546343 Score: 139
Period size: 48 Copynumber: 2.2 Consensus size: 48
48546226 TATCATAAAT
48546236 ATGGTCTTACACTGGCACACATATCAACACTGATGCCATGTACAGAAC
1 ATGGTCTTACACTGGCACACATATCAACACTGATGCCATGTACAGAAC
* * * *
48546284 ATGGTCTTACACTGGCTCTCATCTCAA-ATGTCGATGCCATGTACCA-AAC
1 ATGGTCTTACACTGGCACACATATCAACA-CT-GATGCCATGTA-CAGAAC
48546333 ATGGTCTTACA
1 ATGGTCTTACA
48546344 AAGGATCTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 25 0.47
49 25 0.47
50 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACACTGGCACACATATCAACACTGATGCCATGTACAGAAC
Found at i:48549859 original size:23 final size:25
Alignment explanation
Indices: 48549828--48549885 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
48549818 CGGATGGCCA
* *
48549828 TATATCAGGAAGTTTA-AAAGAGCC
1 TATATCAGGAAGCTCAGAAAGAGCC
48549852 -ATATCAGGAAGCTCAGAAAGAGCC
1 TATATCAGGAAGCTCAGAAAGAGCC
*
48549876 TATGTCAGGA
1 TATATCAGGA
48549886 CATTCATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.45
24 8 0.28
25 8 0.28
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (25 bp):
TATATCAGGAAGCTCAGAAAGAGCC
Found at i:48554176 original size:21 final size:21
Alignment explanation
Indices: 48554152--48554193 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48554142 AATCTTTGGT
48554152 TCAGATACTTTAGTATCCAAC
1 TCAGATACTTTAGTATCCAAC
48554173 TCAGATACTTTAGTATCCAAC
1 TCAGATACTTTAGTATCCAAC
48554194 ACATATGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (21 bp):
TCAGATACTTTAGTATCCAAC
Found at i:48554515 original size:8 final size:8
Alignment explanation
Indices: 48554502--48554578 Score: 52
Period size: 8 Copynumber: 9.6 Consensus size: 8
48554492 TTATGTTTAA
48554502 TATATTAT
1 TATATTAT
48554510 TATATTAT
1 TATATTAT
*
48554518 TATATAAT
1 TATATTAT
* * *
48554526 AAAAATAT
1 TATATTAT
* *
48554534 TTTATGTTT
1 TATAT-TAT
48554543 TA-ATTAT
1 TATATTAT
48554550 TATATTA-
1 TATATTAT
48554557 TAT-TATAT
1 TATAT-TAT
48554565 TATATTAT
1 TATATTAT
48554573 ATATAT
1 -TATAT
48554579 AAACTAAAGA
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
6 1 0.02
7 9 0.18
8 32 0.63
9 9 0.18
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (8 bp):
TATATTAT
Found at i:48554557 original size:5 final size:5
Alignment explanation
Indices: 48554547--48554578 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
48554537 ATGTTTTAAT
48554547 TATTA TATTA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
48554579 AAACTAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:48554641 original size:5 final size:5
Alignment explanation
Indices: 48554631--48554660 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
48554621 CATGAAACAG
48554631 AAAGA AAAGA AAA-A AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A
48554661 TAAATTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:48554650 original size:14 final size:14
Alignment explanation
Indices: 48554631--48554657 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48554621 CATGAAACAG
48554631 AAAGAAAAGAAAAA
1 AAAGAAAAGAAAAA
48554645 AAAGAAAAGAAAA
1 AAAGAAAAGAAAA
48554658 GAATAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAAAA
Found at i:48555416 original size:36 final size:38
Alignment explanation
Indices: 48555348--48555439 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 38
48555338 GTATGTGTGG
48555348 AATTGAATTGAATAT-TGACTTGAAAATGG-AAAAGTGA
1 AATTGAATTGAAT-TGTGACTTGAAAATGGAAAAAGTGA
* *
48555385 ATTTTGAATTGAATTGTGA-TTGAAAGT-GAAAAAGTGA
1 A-ATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTGA
*
48555422 AATTGAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
48555440 ATTTGAGAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 16 0.33
37 18 0.38
38 14 0.29
ACGTcount: A:0.43, C:0.01, G:0.23, T:0.33
Consensus pattern (38 bp):
AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTGA
Found at i:48568534 original size:19 final size:19
Alignment explanation
Indices: 48568510--48568548 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48568500 TAAAATTTTA
*
48568510 ATATTTTATTT-TATAGAAT
1 ATATTTT-TTTATATAAAAT
48568529 ATATTTTTTTATATAAAAT
1 ATATTTTTTTATATAAAAT
48568548 A
1 A
48568549 AAGTTCCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTTTTTTATATAAAAT
Found at i:48568538 original size:17 final size:17
Alignment explanation
Indices: 48568509--48568541 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48568499 CTAAAATTTT
48568509 AATATTTTATTTTATAG
1 AATATTTTATTTTATAG
48568526 AATATATTT-TTTTATA
1 AATAT-TTTATTTTATA
48568542 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATATTTTATTTTATAG
Found at i:48571553 original size:17 final size:17
Alignment explanation
Indices: 48571533--48571566 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48571523 AAAAATACAT
48571533 AAATAAATTTAAATTTA
1 AAATAAATTTAAATTTA
* *
48571550 AAATATATTTATATTTA
1 AAATAAATTTAAATTTA
48571567 TATTTTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATAAATTTAAATTTA
Found at i:48578930 original size:28 final size:28
Alignment explanation
Indices: 48578877--48578931 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
48578867 ATTTTACATC
* *
48578877 AATAAAATTAACATAACCTTTTTTTAAA
1 AATAAAATTAACACAACATTTTTTTAAA
48578905 AATAAAATTAACACAA-ATTTTATTTAA
1 AATAAAATTAACACAACATTTT-TTTAA
48578932 GTGAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (28 bp):
AATAAAATTAACACAACATTTTTTTAAA
Found at i:48579280 original size:32 final size:30
Alignment explanation
Indices: 48579225--48579283 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
48579215 AATTTTTTAA
*
48579225 ATAATATATTTTAATTTCAATAATTAACGT
1 ATAATATATTTTAATTTAAATAATTAACGT
*
48579255 ATAATGATATTTATTATTTAAATAATTAA
1 ATAAT-ATATTT-TAATTTAAATAATTAA
48579284 ATATAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 6 0.24
32 14 0.56
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
ATAATATATTTTAATTTAAATAATTAACGT
Found at i:48579289 original size:31 final size:30
Alignment explanation
Indices: 48579225--48579290 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
48579215 AATTTTTTAA
* *
48579225 ATAATATATTTTAATTTCAATAATTAACGT
1 ATAATATATTTTAATTTAAATAATTAACAT
*
48579255 ATAATGATATTTATTATTTAAATAATTAA-AT
1 ATAAT-ATATTT-TAATTTAAATAATTAACAT
48579286 ATAAT
1 ATAAT
48579291 TCAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 5 0.16
31 12 0.39
32 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
ATAATATATTTTAATTTAAATAATTAACAT
Found at i:48579313 original size:22 final size:22
Alignment explanation
Indices: 48579263--48579320 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
48579253 GTATAATGAT
*
48579263 ATTTATT-ATTTAAATA-ATTA
1 ATTTATTAATTCAAATATATTA
*
48579283 A-ATA-TAATTCAAATATATTA
1 ATTTATTAATTCAAATATATTA
48579303 ATTTATTAATTCAAATAT
1 ATTTATTAATTCAAATAT
48579321 TATAATAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 10 0.32
20 6 0.19
21 2 0.06
22 12 0.39
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATTAATTCAAATATATTA
Found at i:48580198 original size:16 final size:16
Alignment explanation
Indices: 48580177--48580211 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48580167 CAAATCGTAG
48580177 TTGTTTGAAAAATATA
1 TTGTTTGAAAAATATA
48580193 TTGTTTGAAAAATATA
1 TTGTTTGAAAAATATA
48580209 TTG
1 TTG
48580212 ACTAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (16 bp):
TTGTTTGAAAAATATA
Found at i:48583711 original size:2 final size:2
Alignment explanation
Indices: 48583698--48583727 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48583688 CGACCTTTGG
*
48583698 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48583728 GAAATATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48587511 original size:18 final size:19
Alignment explanation
Indices: 48587480--48587520 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
48587470 AAGTTCTAAT
* *
48587480 AAATAATATTAATTTTTAA
1 AAATAATATAAATTTATAA
48587499 AAAT-ATATAAATTTATAA
1 AAATAATATAAATTTATAA
48587517 AAAT
1 AAAT
48587521 TATCTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAATATAAATTTATAA
Found at i:48588435 original size:23 final size:23
Alignment explanation
Indices: 48588388--48588435 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48588378 TTGATTAAAT
* *
48588388 TAAAATTATTTTTATTTATTTTA
1 TAAAATAATTTTTATTTATTATA
48588411 TAAAATAATTTTTATTT-TGTATA
1 TAAAATAATTTTTATTTAT-TATA
48588434 TA
1 TA
48588436 TCTAAGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TAAAATAATTTTTATTTATTATA
Found at i:48591734 original size:40 final size:40
Alignment explanation
Indices: 48591671--48591764 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
48591661 CCATCTCCAA
* *
48591671 CCAACCCAACACACC-A-TGTGGGGATAGAATCAACCCA-
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
* *
48591708 CTCAACCCTACATACCAAGTATGGGGATATAATCAACCCAT
1 C-CAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
48591749 CCAACCCTACACACCA
1 CCAACCCTACACACCA
48591765 CAAGGTATCG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
37 1 0.02
38 12 0.25
39 1 0.02
40 33 0.69
41 1 0.02
ACGTcount: A:0.37, C:0.36, G:0.12, T:0.15
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
Found at i:48592162 original size:17 final size:18
Alignment explanation
Indices: 48592129--48592162 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48592119 TATGCCCTGC
*
48592129 CCGTGTGGGCCCCCACGA
1 CCGTGTGGGCCCACACGA
48592147 CCGTGT-GGCCCACACG
1 CCGTGTGGGCCCACACG
48592163 GCCTAACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.44, G:0.32, T:0.12
Consensus pattern (18 bp):
CCGTGTGGGCCCACACGA
Found at i:48593426 original size:47 final size:48
Alignment explanation
Indices: 48593310--48593475 Score: 235
Period size: 48 Copynumber: 3.5 Consensus size: 48
48593300 GGGCCTTACA
* * * * *
48593310 ATGTCCTAGATATGGTCTTACACTGGCATACATATCATCGCTGATGCC
1 ATGTCCCAGACATGGTTTTACACTGGCACACATATCATCGCCGATGCC
* *
48593358 ATGTCCCAGACATGGTTTTACACTGGCACATATATCATCACCGATG-C
1 ATGTCCCAGACATGGTTTTACACTGGCACACATATCATCGCCGATGCC
* *
48593405 ATGTCCCAGACACGGTTTTACACTGGCACACAAATCATCGCCGATGCC
1 ATGTCCCAGACATGGTTTTACACTGGCACACATATCATCGCCGATGCC
*
48593453 ATGTCCCAGACATGGTCTTACAC
1 ATGTCCCAGACATGGTTTTACAC
48593476 AGAATCTCAA
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 43 0.41
48 61 0.59
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGTCCCAGACATGGTTTTACACTGGCACACATATCATCGCCGATGCC
Found at i:48602631 original size:11 final size:12
Alignment explanation
Indices: 48602584--48602633 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
48602574 ATTAATTTAC
*
48602584 TTAATAT-TAAA
1 TTAATATATATA
* *
48602595 TTAAAATATATT
1 TTAATATATATA
48602607 TTAATATATGATA
1 TTAATATAT-ATA
48602620 TTAATAT-TATA
1 TTAATATATATA
48602631 TTA
1 TTA
48602634 TGTTAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 12 0.38
12 11 0.34
13 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
TTAATATATATA
Found at i:48605084 original size:21 final size:20
Alignment explanation
Indices: 48605035--48605091 Score: 105
Period size: 20 Copynumber: 2.8 Consensus size: 20
48605025 AGCAGACAGA
48605035 GGCACACGCCCGTGTGGAAG
1 GGCACACGCCCGTGTGGAAG
48605055 GGCACACGCCCGTGTGGAAG
1 GGCACACGCCCGTGTGGAAG
48605075 GGCGACACGCCCGTGTG
1 GGC-ACACGCCCGTGTG
48605092 TCTTCTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.18, C:0.32, G:0.40, T:0.11
Consensus pattern (20 bp):
GGCACACGCCCGTGTGGAAG
Found at i:48606382 original size:48 final size:48
Alignment explanation
Indices: 48606311--48606688 Score: 375
Period size: 48 Copynumber: 7.9 Consensus size: 48
48606301 GGGTAACTTA
* * * * * *
48606311 CCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCCCATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * *
48606359 CCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCATCTCAATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * **
48606407 CCGATGCCATGTCCCAGACATGATCTTACACTAGCGCTCATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * * *
48606455 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * **
48606503 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAT-T-TGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-G
* * * * * *
48606550 CTGACGCCATGTTCCAAACATGGTCTTACACTAGCGCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * ** * *
48606598 CCGATGCCATGTCCCAGAGATGTTCTTACACCGGCTCTCATAACATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * * * *
48606646 TCGATGCCATGTTCCA-AGCGTGGTCTTACATTGGCTCTCATAT
1 CCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCTCATAT
48606689 TGTAGCCATG
Statistics
Matches: 272, Mismatches: 54, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
46 1 0.00
47 39 0.14
48 231 0.85
49 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
Found at i:48606627 original size:143 final size:143
Alignment explanation
Indices: 48606310--48606692 Score: 464
Period size: 143 Copynumber: 2.7 Consensus size: 143
48606300 AGGGTAACTT
* * ** * *
48606310 ACCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCCCATGTCGA-GGCCGATGCCATGTCCC
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-ATTGCCGATGCCATGTTCC
* * * ** * *
48606374 AGATATGGTCTTACACTAGCTCTCATCTCAATACCGATGCCATGTCCCAGACATGATCTTACACT
65 AAACATGGTCTTACACTAGCTCTCATAT-TGTACCGACGCCATGTCCCAAACATGATCTTACACT
*
48606439 AGCGCTCATATCAAC
129 AGCGCACATATCAAC
*
48606454 ACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCCGATGCCATGTTCCA
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCCGATGCCATGTTCCA
* * * *
48606519 AACATGGTCTTACACTAGCTCTCAT-TTGTGGCTGACGCCATGTTCCAAACATGGTCTTACACTA
66 AACATGGTCTTACACTAGCTCTCATATTGT-ACCGACGCCATGTCCCAAACATGATCTTACACTA
*
48606583 GCGCACATATCAAT
130 GCGCACATATCAAC
* * * * *
48606597 GCCGATGCCATGTCCCAGAGATGTTCTTACACCGGCTCTCATAACATTGTCGATGCCATGTTCCA
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCCGATGCCATGTTCCA
* * * *
48606662 AGCGTGGTCTTACATTGGCTCTCATATTGTA
66 AACATGGTCTTACACTAGCTCTCATATTGTA
48606693 GCCATGGTCT
Statistics
Matches: 206, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
142 1 0.00
143 122 0.59
144 83 0.40
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (143 bp):
ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCTCATATTGTACCGACGCCATGTCCCAAACATGATCTTACACTAG
CGCACATATCAAC
Found at i:48616644 original size:15 final size:15
Alignment explanation
Indices: 48616618--48616660 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
48616608 TTATTAAATT
48616618 ATATACTTTAATTATA
1 ATATA-TTTAATTATA
*
48616634 ATATATTTAATAATA
1 ATATATTTAATTATA
48616649 AT-TATGTTAATT
1 ATATAT-TTAATT
48616661 TATATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 16 0.67
16 5 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:48616742 original size:61 final size:61
Alignment explanation
Indices: 48616557--48616744 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
48616547 TTATAGTATC
48616557 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * *
48616618 ATATACTT-TAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTAT
1 ATATA-TTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AAT
*
48616676 C
61 T
48616677 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
48616738 ATATATT
1 ATATATT
48616745 TTAATTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
58 5 0.05
59 27 0.28
60 26 0.27
61 34 0.35
62 5 0.05
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:48616759 original size:16 final size:16
Alignment explanation
Indices: 48616738--48616779 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48616728 TTATTAAATT
*
48616738 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48616754 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48616769 AT-TATGTTTAA
1 ATATAT-TTTAA
48616780 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48616760 original size:120 final size:120
Alignment explanation
Indices: 48616547--48616776 Score: 451
Period size: 120 Copynumber: 1.9 Consensus size: 120
48616537 TTTGAGTAAA
48616547 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
48616612 TAAATTATATACTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATACTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
48616667 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
*
48616732 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATACTTTAATTATAATATATTTAATAATAATTATGTT
48616777 TAAATATGAT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATACTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:48616764 original size:15 final size:15
Alignment explanation
Indices: 48616729--48616770 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48616719 TTAAGAATTT
*
48616729 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48616743 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48616757 TATTTAATAATAAT
1 TATTTAATTATAAT
48616771 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48617005 original size:45 final size:43
Alignment explanation
Indices: 48616905--48617014 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
48616895 TTTTCCATTA
48616905 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
48616944 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
48616989 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
48617015 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:48617016 original size:16 final size:16
Alignment explanation
Indices: 48616995--48617062 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
48616985 GATTTGCTAT
*
48616995 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
48617011 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
48617027 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48617043 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48617059 TACA
1 TACA
48617063 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48617624 original size:48 final size:48
Alignment explanation
Indices: 48617548--48617919 Score: 204
Period size: 48 Copynumber: 7.8 Consensus size: 48
48617538 AGGGTAAATT
* *
48617548 GCCGATGCCATGTCCCAGACATGATCTTACACT-GACTC-CCACGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCCAC-TCAAG
* * * ** *
48617596 GCCGATGCCATTTCCCAAACATGGTCTTATACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCACTCAAG
* * *
48617644 GCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTGT-CA-TAATATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCACTCA-A-G
* * * * ***
48617692 GTCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCT-CATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCA-CTCAAG
* * * * * * * * * *
48617740 GCCGACGCTATGTTCCAAACATGGTCTTATACAAG-TGTACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCA-CTCAAG
* * **
48617788 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA-TAACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCACT--CAAG
* * * * * * ***
48617836 GCTGATGCCATGTTCCAAACATGTTCTTACACTGGCTCT-CATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCA-CTCAAG
* * *
48617884 GCCGACGCCATGTTCCAAACATGGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
48617920 ACACATATCA
Statistics
Matches: 253, Mismatches: 59, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
46 3 0.01
47 3 0.01
48 240 0.95
49 5 0.02
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCACTCAAG
Found at i:48617926 original size:144 final size:144
Alignment explanation
Indices: 48617545--48617929 Score: 461
Period size: 144 Copynumber: 2.7 Consensus size: 144
48617535 AAGAGGGTAA
* * * * ** * * *
48617545 ATTGCCGATGCCATGTCCCAGACATGATCTTACACTGACTCCCACGTCGAGGCCGATGCCAT-TT
1 ATTGCTGATGCCATGTTCCAGACATGATCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTT
* * * * *
48617609 CCCAAACATGGTCTTATACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTAC
66 -CCAAACATGGTCTTATACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTAC
* * *
48617674 ACTTGCTGTCATAAT
130 ACTGGCTCTCATAAC
* * * * *
48617689 A-TGGTCGACGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATTGTGGCCGACGCTATG
1 ATTGCT-GATGCCATGTTCC-AGACATGATCTTACACTGGCTCTCATATTGTGGCCGACGCCATG
* ***
48617752 TTCCAAACATGGTCTTATACAAGTGTACATATCAATACCGATGCCATGTCCCAGACATGGTCTTA
64 TTCCAAACATGGTCTTATACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTA
48617817 CACTGGCTCTCATAAC
129 CACTGGCTCTCATAAC
* *
48617833 ATTGCTGATGCCATGTTCCAAACATGTTCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTT
1 ATTGCTGATGCCATGTTCCAGACATGATCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTT
*
48617898 CCAAACATGGTCTTACACTAGCACACATATCA
66 CCAAACATGGTCTTATACTAGCACACATATCA
48617930 CCCAAATGTC
Statistics
Matches: 200, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
143 4 0.02
144 188 0.94
145 8 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (144 bp):
ATTGCTGATGCCATGTTCCAGACATGATCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTT
CCAAACATGGTCTTATACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACA
CTGGCTCTCATAAC
Found at i:48617927 original size:48 final size:48
Alignment explanation
Indices: 48617595--48617919 Score: 282
Period size: 48 Copynumber: 6.8 Consensus size: 48
48617585 CCCACGTCGA
* * * * *
48617595 GGCCGATGCCAT-TTCCCAAACATGGTCTTATACTAGCTCTCGTCTCAAT
1 GGCCGACGCCATGTT-CCAAACATGGTCTTACACTAGCTCTCATAT-TAT
* * * * * *
48617644 -GCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTGTCATAATAT
1 GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAT
* * *
48617691 GGTCGACGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATTGT
1 GGCCGACGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATATTAT
* * * * *
48617739 GGCCGACGCTATGTTCCAAACATGGTCTTATACAAG-TGTACATATCAAT
1 GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCT-CATAT-TAT
* * * * * **
48617788 -ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACAT
1 GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAT
* * * * * *
48617835 TGCTGATGCCATGTTCCAAACATGTTCTTACACTGGCTCTCATATTGT
1 GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAT
48617883 GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGC
1 GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGC
48617920 ACACATATCA
Statistics
Matches: 220, Mismatches: 48, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
47 8 0.04
48 205 0.93
49 7 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
GGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAT
Found at i:48623919 original size:24 final size:25
Alignment explanation
Indices: 48623879--48623935 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 25
48623869 TATATTTTAT
*
48623879 ATATCATACCACAACAAAATACAAA
1 ATATTATACCACAACAAAATACAAA
48623904 ATATTATA-CACAACAAAATACAAA
1 ATATTATACCACAACAAAATACAAA
48623928 ATATTATA
1 ATATTATA
48623936 ATGTCAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 24 0.77
25 7 0.23
ACGTcount: A:0.60, C:0.18, G:0.00, T:0.23
Consensus pattern (25 bp):
ATATTATACCACAACAAAATACAAA
Found at i:48625278 original size:9 final size:9
Alignment explanation
Indices: 48625264--48625305 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
48625254 GAAATTAAAA
48625264 ATATAAATT
1 ATATAAATT
48625273 ATATAAATT
1 ATATAAATT
* **
48625282 ATTTAAAAA
1 ATATAAATT
48625291 ATATAAATT
1 ATATAAATT
48625300 -TATAAA
1 ATATAAA
48625306 AAAATTATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATATAAATT
Found at i:48625308 original size:19 final size:18
Alignment explanation
Indices: 48625273--48625316 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
48625263 AATATAAATT
**
48625273 ATATAAATTATTTAAAAA
1 ATATAAATTATAAAAAAA
48625291 ATATAAATTTATAAAAAAA
1 ATATAAA-TTATAAAAAAA
*
48625310 TTATAAA
1 ATATAAA
48625317 AATTATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAAATTATAAAAAAA
Found at i:48625309 original size:18 final size:18
Alignment explanation
Indices: 48625273--48625316 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
48625263 AATATAAATT
*
48625273 ATATAAATTATTTAAAAA
1 ATATAAATTATTAAAAAA
48625291 ATATAAATT-TATAAAAAA
1 ATATAAATTAT-TAAAAAA
48625309 ATTATAAA
1 A-TATAAA
48625317 AATTATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAAATTATTAAAAAA
Found at i:48625317 original size:27 final size:28
Alignment explanation
Indices: 48625259--48625319 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
48625249 ATTTTGAAAT
** *
48625259 TAAAAATATAAATTATATAAATTATTTA
1 TAAAAATATAAATTATATAAAAAAATTA
48625287 -AAAAATATAAATT-TATAAAAAAATTA
1 TAAAAATATAAATTATATAAAAAAATTA
48625313 TAAAAAT
1 TAAAAAT
48625320 TATTTCACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TAAAAATATAAATTATATAAAAAAATTA
Found at i:48626673 original size:24 final size:24
Alignment explanation
Indices: 48626641--48626686 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48626631 GGTGACATCA
*
48626641 ATTACTGTAGCAATAAGATTAAGT
1 ATTAATGTAGCAATAAGATTAAGT
**
48626665 ATTAATGTAGTGATAAGATTAA
1 ATTAATGTAGCAATAAGATTAA
48626687 AATAAGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (24 bp):
ATTAATGTAGCAATAAGATTAAGT
Found at i:48627171 original size:31 final size:30
Alignment explanation
Indices: 48627147--48627208 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
48627137 AATTACCTAC
48627147 AAAAAG-TATGGAAAACATATTAATTACGA
1 AAAAAGATATGGAAAACATATTAATTACGA
** *
48627176 AAGGAGATATGGAAAACATATTAATTATGA
1 AAAAAGATATGGAAAACATATTAATTACGA
48627206 AAA
1 AAA
48627209 TAGACATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (30 bp):
AAAAAGATATGGAAAACATATTAATTACGA
Found at i:48633991 original size:69 final size:70
Alignment explanation
Indices: 48633859--48633991 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
48633849 TATTTTATTA
* * * * *
48633859 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
48633924 CTTAG
66 CTTAG
48633929 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
48633992 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:48635433 original size:47 final size:47
Alignment explanation
Indices: 48635379--48635830 Score: 769
Period size: 47 Copynumber: 9.6 Consensus size: 47
48635369 TATTTGAATA
*
48635379 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48635426 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48635473 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48635522 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48635569 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48635616 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48635663 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48635710 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
48635757 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48635804 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
48635831 TCCCAAAGGG
Statistics
Matches: 386, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 341 0.88
49 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48661540 original size:4 final size:5
Alignment explanation
Indices: 48661483--48661539 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
48661473 CTTTTTCCCT
*
48661483 TTTTC TTTTC ATTTTC TTTTAC ATTTT- TATTC TTCTTTC TTTTC TTTTC
1 TTTTC TTTTC -TTTTC TTTT-C -TTTTC TTTTC -T-TTTC TTTTC TTTTC
48661532 TTTTC TTT
1 TTTTC TTT
48661540 CACTTGTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 3 0.07
5 26 0.59
6 8 0.18
7 7 0.16
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:48662165 original size:63 final size:63
Alignment explanation
Indices: 48662083--48662245 Score: 195
Period size: 63 Copynumber: 2.6 Consensus size: 63
48662073 CGTATGGCAA
*
48662083 GCCGTGTGACTCACTGTTTGCCATTAAGGACCACATGGGCCAGAGAC-TAGGGTGTGTGT-TCAG
1 GCCGTGTGACTCACTGTTTGCAATTAAGGACCACATGGGCCAGAGACAT-GGGTGTGTGTCT-AG
* * * * * **
48662146 GCTGTGTGACTTACTGTTTGCTATTAGGGACCATACAGGCCAGAGACATGGGTGTGTGTCTAG
1 GCCGTGTGACTCACTGTTTGCAATTAAGGACCACATGGGCCAGAGACATGGGTGTGTGTCTAG
* * *
48662209 GCCGTGTGACTCACTGTTTACAATTCAGGACAACATG
1 GCCGTGTGACTCACTGTTTGCAATTAAGGACCACATG
48662246 AGCAAATGAC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
63 79 0.98
64 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (63 bp):
GCCGTGTGACTCACTGTTTGCAATTAAGGACCACATGGGCCAGAGACATGGGTGTGTGTCTAG
Found at i:48673906 original size:16 final size:16
Alignment explanation
Indices: 48673885--48673928 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
48673875 CCCTAGTCGA
48673885 AAAGTGTGACACCCCT
1 AAAGTGTGACACCCCT
48673901 AAA--GTG--A-CCCT
1 AAAGTGTGACACCCCT
48673912 AAAGTGTGACACCCCT
1 AAAGTGTGACACCCCT
48673928 A
1 A
48673929 GTCGGAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
11 7 0.30
12 1 0.04
13 3 0.13
14 3 0.13
15 1 0.04
16 8 0.35
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (16 bp):
AAAGTGTGACACCCCT
Found at i:48676346 original size:49 final size:49
Alignment explanation
Indices: 48676284--48676811 Score: 874
Period size: 49 Copynumber: 10.9 Consensus size: 49
48676274 TAGTATGGCG
*
48676284 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
48676333 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
48676382 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAAGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
48676431 TAATGGCCGATGTGATGATTGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
48676480 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
**
48676529 TAATGTTCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
48676576 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
48676625 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
48676672 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
48676721 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
48676768 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
48676812 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 22, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
47 138 0.31
48 1 0.00
49 312 0.69
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:48676587 original size:96 final size:96
Alignment explanation
Indices: 48676284--48676811 Score: 880
Period size: 96 Copynumber: 5.5 Consensus size: 96
48676274 TAGTATGGCG
*
48676284 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
48676349 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG--TATATATGTGATAAGGCC
*
48676382 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAAGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
48676447 GATTGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG--TATATATGTGATAAGGCC
* **
48676480 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCTAATGTTCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
48676545 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
48676576 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
48676641 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
*
48676672 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
48676737 GAATGTGAAAGTGTATATATGTGACAGGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
48676768 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
48676812 TCCCGAAGGG
Statistics
Matches: 410, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
94 10 0.02
95 1 0.00
96 231 0.56
98 168 0.41
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (96 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:48678055 original size:13 final size:13
Alignment explanation
Indices: 48678039--48678071 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48678029 TTTGATTAAA
*
48678039 TTAGTTAATTAGT
1 TTAGATAATTAGT
48678052 TTAGATAATTAGT
1 TTAGATAATTAGT
48678065 TTA-ATAA
1 TTAGATAA
48678072 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:48678361 original size:5 final size:5
Alignment explanation
Indices: 48678351--48678375 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48678341 TTTTTCTTGA
48678351 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
48678376 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:48681106 original size:37 final size:37
Alignment explanation
Indices: 48681056--48681134 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
48681046 TTATTACGAA
* * *
48681056 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
48681093 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
48681130 GTCTT
1 GTCTT
48681135 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:48681331 original size:47 final size:47
Alignment explanation
Indices: 48681253--48681978 Score: 1281
Period size: 47 Copynumber: 15.3 Consensus size: 47
48681243 CCCTTCGGGA
* * * * * *
48681253 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48681300 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48681347 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48681441 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681535 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
48681584 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681631 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
48681680 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
48681729 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48681823 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
48681872 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681919 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48681966 CTTATCACATATA
1 CTTATCACATATA
48681979 CTTTCACGTA
Statistics
Matches: 657, Mismatches: 16, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
47 468 0.71
49 189 0.29
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48681595 original size:143 final size:143
Alignment explanation
Indices: 48681253--48681978 Score: 1307
Period size: 143 Copynumber: 5.1 Consensus size: 143
48681243 CCCTTCGGGA
* * * * * * * *
48681253 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
48681316 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCGCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48681381 TCGGCCATTAGGC
131 TCGGCCATTAGGC
48681394 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
48681457 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48681522 TCGGCCATTAGGC
131 TCGGCCATTAGGC
48681535 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
48681600 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACACTTTCACATTCATCA
48681665 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
48681680 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
48681745 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48681810 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
48681823 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
48681888 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48681953 TCGGCCATTAGGC
131 TCGGCCATTAGGC
48681966 CTTATCACATATA
1 CTTATCACATATA
48681979 CTTTCACGTA
Statistics
Matches: 568, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
141 142 0.25
142 1 0.00
143 282 0.50
145 143 0.25
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:48682021 original size:96 final size:91
Alignment explanation
Indices: 48681253--48681985 Score: 1092
Period size: 96 Copynumber: 7.8 Consensus size: 91
48681243 CCCTTCGGGA
* * * * * * * *
48681253 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-AC
48681318 TTTCACATTCATCACATCGGCCATTAGGC
64 TTTCACATTCATCACATCGGCCATTA-GC
*
48681347 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-AC
48681412 TTTCACATTCATCACATCGGCCATTAGGC
64 TTTCACATTCATCACATCGGCCATTA-GC
*
48681441 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-AC
48681506 TTTCACATTCATCACATCGGCCATTAGGC
64 TTTCACATTCATCACATCGGCCATTA-GC
48681535 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-
48681600 ACTTTCACATTCATCACATCGGCCATTAGGC
62 ACTTTCACATTCATCACATCGGCCATTA-GC
48681631 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATAT--
48681696 ACACTTTCACATTCATCACATCGGCCATTAGGC
61 A-ACTTTCACATTCATCACATCGGCCATTA-GC
48681729 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-AC
48681794 TTTCACATTCATCACATCGGCCATTAGGC
64 TTTCACATTCATCACATCGGCCATTA-GC
*
48681823 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-
48681888 ACTTTCACATTCATCACATCGGCCATTAGGC
62 ACTTTCACATTCATCACATCGGCCATTA-GC
48681919 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATAT-ACTT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATAACTT
48681982 TCAC
66 TCAC
48681986 GTATACACAC
Statistics
Matches: 619, Mismatches: 14, Indels: 16
0.95 0.02 0.02
Matches are distributed among these distances:
90 8 0.01
92 4 0.01
94 278 0.45
96 282 0.46
98 47 0.08
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (91 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATAACTT
TCACATTCATCACATCGGCCATTAGC
Found at i:48687558 original size:14 final size:15
Alignment explanation
Indices: 48687539--48687568 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48687529 TGAATCCTCC
48687539 TATTTTATT-TTATT
1 TATTTTATTCTTATT
48687553 TATTTTATTCTTATT
1 TATTTTATTCTTATT
48687568 T
1 T
48687569 TTCTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTATTCTTATT
Found at i:48690517 original size:13 final size:13
Alignment explanation
Indices: 48690496--48690534 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
48690486 CTTTGCTTTT
* *
48690496 ATTAATTTAGTTA
1 ATTAGTTTAGATA
48690509 ATTAGTTTAGATA
1 ATTAGTTTAGATA
48690522 ATTAGTTTA-ATA
1 ATTAGTTTAGATA
48690534 A
1 A
48690535 ACAAACTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
ATTAGTTTAGATA
Found at i:48694956 original size:21 final size:22
Alignment explanation
Indices: 48694911--48694961 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
48694901 AATTTTTTTA
48694911 AAATATCAAATATTAAAATATT
1 AAATATCAAATATTAAAATATT
48694933 AAA-ATCAAATATTAAAA-ATGT
1 AAATATCAAATATTAAAATAT-T
48694954 AAATATCA
1 AAATATCA
48694962 TTAAACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.07
21 18 0.67
22 7 0.26
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATATCAAATATTAAAATATT
Found at i:48695091 original size:16 final size:17
Alignment explanation
Indices: 48695055--48695091 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
48695045 TATTTCACTT
*
48695055 TAATAATAAATTTTAAA
1 TAATAATAAATTGTAAA
48695072 -AATAAT-AATTGTAAA
1 TAATAATAAATTGTAAA
48695087 TAATA
1 TAATA
48695092 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTGTAAA
Found at i:48704073 original size:34 final size:34
Alignment explanation
Indices: 48704019--48704102 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 34
48704009 ACTATTATTA
* * * *
48704019 AAATAGGCTCGGGCCCAGACTGCTACTGTTACTG
1 AAATGGGCTCAGGCCCAGACTGCAACTGTTAATG
*
48704053 AAATGGGCTCAGGCCTAGACTGCAACTGTTAATG
1 AAATGGGCTCAGGCCCAGACTGCAACTGTTAATG
*
48704087 AAATGGGCTAAGGCCC
1 AAATGGGCTCAGGCCC
48704103 TAATTGAGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (34 bp):
AAATGGGCTCAGGCCCAGACTGCAACTGTTAATG
Found at i:48711464 original size:14 final size:15
Alignment explanation
Indices: 48711428--48711468 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
48711418 GATTAGTCCC
48711428 AAATCATAATAAACT
1 AAATCATAATAAACT
**
48711443 TGAT-ATAATAAA-T
1 AAATCATAATAAACT
48711456 AAATCATAATAAA
1 AAATCATAATAAA
48711469 ATATACCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (15 bp):
AAATCATAATAAACT
Found at i:48713221 original size:18 final size:18
Alignment explanation
Indices: 48713178--48713222 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
48713168 GATATTAATT
*
48713178 ATTATAAAATAATATTTT
1 ATTATAAAATAATATTTG
48713196 ATTATAAAATTAAT-TTTG
1 ATTATAAAA-TAATATTTG
*
48713214 ATTGTAAAA
1 ATTATAAAA
48713223 AAAAATTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
ATTATAAAATAATATTTG
Found at i:48713869 original size:20 final size:20
Alignment explanation
Indices: 48713832--48713870 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48713822 AAATATATAA
*
48713832 ATTAAAAAAACTTCAAAATT
1 ATTAAAAAAACTTAAAAATT
* *
48713852 ATTAATAAATCTTAAAAAT
1 ATTAAAAAAACTTAAAAAT
48713871 GCTAAATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTAAAAAAACTTAAAAATT
Found at i:48719917 original size:104 final size:105
Alignment explanation
Indices: 48719703--48719888 Score: 288
Period size: 104 Copynumber: 1.8 Consensus size: 105
48719693 TGATTAAAAT
* * * *
48719703 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAACATT
*
48719768 AAACCTTATTAAAATAATAAAATGTTTATAAACATTAAGA
66 AAACCTTATTAAAATAATAAAATGTTTAAAAACATTAAGA
* *
48719808 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTAAATTTAACATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAACATT
48719872 AAA-C-TATTAAAATAATA
66 AAACCTTATTAAAATAATA
48719889 TTATTTTTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
102 13 0.17
103 1 0.01
104 32 0.43
105 29 0.39
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (105 bp):
TAATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAACATT
AAACCTTATTAAAATAATAAAATGTTTAAAAACATTAAGA
Found at i:48724045 original size:35 final size:41
Alignment explanation
Indices: 48724005--48724098 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
48723995 AATAAAAATT
*
48724005 ATAAAAA-AATTAAA-ATGAT-AATAAAGA-AAAA-TG-AA
1 ATAAAAAGAATTAAATAAGATAAATAAAGATAAAAGTGAAA
*
48724040 ATAAAAAGTACTTAAATAAGATAAATAAAGATAAAAGTGAAA
1 ATAAAAAG-AATTAAATAAGATAAATAAAGATAAAAGTGAAA
*
48724082 ATAAAAATAA-TAAATAA
1 ATAAAAAGAATTAAATAA
48724099 AAAGTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
35 7 0.15
37 6 0.12
38 4 0.08
39 8 0.17
40 11 0.23
41 3 0.06
42 9 0.19
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.21
Consensus pattern (41 bp):
ATAAAAAGAATTAAATAAGATAAATAAAGATAAAAGTGAAA
Found at i:48735512 original size:50 final size:50
Alignment explanation
Indices: 48735437--48735569 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
48735427 AGCTATTGTG
**
48735437 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGG-TGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATAATT
* *
48735487 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATT
* * *
48735537 -GGTCGCATGTGTAGTACTAAGTGCAGGGTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
48735570 TGCGTACCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 32 0.43
50 42 0.57
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATT
Found at i:48739144 original size:50 final size:50
Alignment explanation
Indices: 48739065--48739197 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
48739055 AGCTATTGTG
* **
48739065 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGG-TGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CAGGATAATT
* *
48739115 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATT
* *
48739165 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
48739198 TGCGTACCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 33 0.45
50 41 0.55
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATT
Found at i:48742663 original size:47 final size:47
Alignment explanation
Indices: 48742609--48742802 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
48742599 TTAGGATTTT
** * *
48742609 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48742656 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48742703 ATGTGATGAATGTGAGCATGCATATGTGTGATTAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
48742750 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48742797 ATGTGA
1 ATGTGA
48742803 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48742709 original size:22 final size:22
Alignment explanation
Indices: 48742638--48742709 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
48742628 GTATATATGA
48742638 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
48742660 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
48742685 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
48742707 GAT
1 GAT
48742710 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:48742835 original size:48 final size:48
Alignment explanation
Indices: 48742772--48743052 Score: 483
Period size: 48 Copynumber: 5.8 Consensus size: 48
48742762 TGAACATGCA
48742772 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48742820 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
48742868 TATATGTGGTAAAGACGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48742916 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48742964 CATATGTGGTAAAGCAGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
48743014 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
48743053 GGCGATGTGC
Statistics
Matches: 220, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 1 0.00
48 174 0.79
49 4 0.02
50 40 0.18
51 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48743088 original size:144 final size:143
Alignment explanation
Indices: 48742772--48743092 Score: 416
Period size: 144 Copynumber: 2.2 Consensus size: 143
48742762 TGAACATGCA
* * * * *
48742772 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGT-AAGCCGAACGACCAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCAG
*
48742837 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGACGAATGGCTAATGTGAAAT
65 AATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGACGAATGGCTAATGTGAAAT
*
48742902 ATGTATGAGATATG
130 ATGTAGGAGATATG
* * *
48742916 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCAG
1 TATATGTGGT-AAGCCGAACGACCAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCAG
* *
48742981 AATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
65 AATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGACGAATGGCTAATGTGA
* *
48743045 AATATGTAGGCGATGTGCG
127 AATATGTAGGAGATAT--G
*
48743064 TATAT-T-GT-GGCCGAACGACCAATGTGAAA
1 TATATGTGGTAAGCCGAACGACCAATGTGAAA
48743093 GGTGTGTATT
Statistics
Matches: 160, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
143 1 0.01
144 91 0.57
145 2 0.01
146 59 0.37
147 1 0.01
148 6 0.04
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (143 bp):
TATATGTGGTAAGCCGAACGACCAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCAGA
ATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGACGAATGGCTAATGTGAAATA
TGTAGGAGATATG
Found at i:48743306 original size:37 final size:37
Alignment explanation
Indices: 48743198--48743306 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
48743188 GGAAATATAT
* *
48743198 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48743235 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
48743272 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
48743307 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48744931 original size:40 final size:40
Alignment explanation
Indices: 48744568--48744919 Score: 562
Period size: 40 Copynumber: 8.8 Consensus size: 40
48744558 GAGAATTGAG
*
48744568 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48744608 AGTGGTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48744648 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48744688 AGTGATGTATCCGGACTAAGTCACGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48744728 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTAGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48744768 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48744808 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
48744848 AGTGATGTATCCGGGCTAAG-CTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTC-CCGAAGAGCATTCGTGCT
* * * *
48744888 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
48744920 ATCATGCTGG
Statistics
Matches: 297, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 295 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:48751565 original size:24 final size:24
Alignment explanation
Indices: 48751504--48751569 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
48751494 TGATGGATTT
*
48751504 TAGCCATTTGATTTGGCTTGTAAA
1 TAGCCATGTGATTTGGCTTGTAAA
* *
48751528 T-G--ATGTGTAATTTGGGTTGTGAA
1 TAGCCATGTG--ATTTGGCTTGTAAA
48751551 TAGCCATGTGATTTGGCTT
1 TAGCCATGTGATTTGGCTT
48751570 ATCTTGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
21 4 0.12
23 14 0.42
24 10 0.30
26 5 0.15
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (24 bp):
TAGCCATGTGATTTGGCTTGTAAA
Found at i:48752841 original size:129 final size:129
Alignment explanation
Indices: 48752611--48752872 Score: 465
Period size: 129 Copynumber: 2.0 Consensus size: 129
48752601 AGAAACAACT
* *
48752611 TTTTTCGCTAAATAAAAAAACAGCCTAATTGACAAACTAAAAAAAACAAACATCATATATAGCTA
1 TTTTTCGCTAAATAAAAAAACAACCTAATTGACAAACTAAAAAAAACAAACAGCATATATAGCTA
*
48752676 AATTAGCCAGAAAAAAATTATATAATAAATTTATAAAAAAAATTGATATAAAATGTTAATATGA
66 AATTAGCCAGAAAAAAATTATATAATAAATTTATAAAAAAAATCGATATAAAATGTTAATATGA
48752740 TTTTT-GCTAAATAAAAAAAAACAACCTAATTGACAAACT-AAAAAAACAAACAGCATATATAGC
1 TTTTTCGCTAAAT--AAAAAAACAACCTAATTGACAAACTAAAAAAAACAAACAGCATATATAGC
48752803 TAAATTAGCCAGAAAAAAATTATATAATAAATTTATAAAAAAAATCGATATAAAATGTTAATATG
64 TAAATTAGCCAGAAAAAAATTATATAATAAATTTATAAAAAAAATCGATATAAAATGTTAATATG
48752868 A
129 A
48752869 TTTT
1 TTTT
48752873 GATTGCAATG
Statistics
Matches: 128, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
128 7 0.05
129 97 0.76
130 24 0.19
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (129 bp):
TTTTTCGCTAAATAAAAAAACAACCTAATTGACAAACTAAAAAAAACAAACAGCATATATAGCTA
AATTAGCCAGAAAAAAATTATATAATAAATTTATAAAAAAAATCGATATAAAATGTTAATATGA
Found at i:48756846 original size:38 final size:38
Alignment explanation
Indices: 48756804--48756876 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
48756794 GTTAACACTG
*
48756804 CGACTGTTAAACT-AAAAGCATGTGAAGCATGTCTACTA
1 CGACTATTAAACTGAAAA-CATGTGAAGCATGTCTACTA
* * *
48756842 CGACTATTGAACTGAATACATGTTAAGCATGTCTA
1 CGACTATTAAACTGAAAACATGTGAAGCATGTCTA
48756877 TTGTTACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.90
39 3 0.10
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (38 bp):
CGACTATTAAACTGAAAACATGTGAAGCATGTCTACTA
Found at i:48757075 original size:22 final size:22
Alignment explanation
Indices: 48757009--48757075 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
48756999 AATAATTTGT
*
48757009 AAACACTAGTGGTTCAT-C-CA
1 AAACACTGGTGGTTCATCCACA
* *
48757029 AAACTTACTGG-GGATTTATCTACA
1 AAAC--ACTGGTGG-TTCATCCACA
48757053 AAACACTGGTGGTTCATCCACA
1 AAACACTGGTGGTTCATCCACA
48757075 A
1 A
48757076 CCTACTAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
20 4 0.11
21 2 0.06
22 22 0.61
23 2 0.06
24 6 0.17
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (22 bp):
AAACACTGGTGGTTCATCCACA
Found at i:48758777 original size:91 final size:91
Alignment explanation
Indices: 48758611--48758783 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 91
48758601 TTTGTAGATA
* * * *
48758611 AACCACCAAAAGGTGTAGGTTAATATGCTGCCAGATAGTTGTGAATACATAACATAATTACATAT
1 AACCACCAAAAGGTGTAGGTTAATACGCTACCAGATAGTTATGAATACATAACATAATTACAGAT
48758676 AAAAGATGCCAGATAATGGGTGGGCG
66 AAAAGATGCCAGATAATGGGTGGGCG
* * * **
48758702 AACCACC-AAAGGTTGTAGTTTAATACGCTATCAGATGGTTATGAATACATAACATTTTTACAGA
1 AACCACCAAAAGG-TGTAGGTTAATACGCTACCAGATAGTTATGAATACATAACATAATTACAGA
* *
48758766 TAGAAGTTGCCAGATAAT
65 TAAAAGATGCCAGATAAT
48758784 ATGTGGATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
90 5 0.07
91 65 0.93
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (91 bp):
AACCACCAAAAGGTGTAGGTTAATACGCTACCAGATAGTTATGAATACATAACATAATTACAGAT
AAAAGATGCCAGATAATGGGTGGGCG
Found at i:48767848 original size:28 final size:28
Alignment explanation
Indices: 48767815--48767873 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
48767805 TTAAAATCCC
48767815 TTTGTGGTTTGATAAAAACTTTAGTATG
1 TTTGTGGTTTGATAAAAACTTTAGTATG
48767843 TTTGTGGTTTGATAAAAACTTTAGTATG
1 TTTGTGGTTTGATAAAAACTTTAGTATG
48767871 TTT
1 TTT
48767874 ATAGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.49
Consensus pattern (28 bp):
TTTGTGGTTTGATAAAAACTTTAGTATG
Found at i:48767883 original size:24 final size:26
Alignment explanation
Indices: 48767826--48767880 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
48767816 TTGTGGTTTG
* *
48767826 ATAAAAACTTTAGTATGTTTGTGGTTT
1 ATAAAAACTTTAGTATGTTTATAG-TT
48767853 GATAAAAACTTTAGTATGTTTATAGTT
1 -ATAAAAACTTTAGTATGTTTATAGTT
48767880 A
1 A
48767881 AAATCCTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 2 0.08
28 22 0.88
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (26 bp):
ATAAAAACTTTAGTATGTTTATAGTT
Found at i:48770168 original size:24 final size:24
Alignment explanation
Indices: 48770141--48770187 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48770131 TCCTAAAATC
48770141 TCTCCATAATCCTCTCCTTGATTT
1 TCTCCATAATCCTCTCCTTGATTT
* *
48770165 TCTCCCTAATCTTCTCCTTGATT
1 TCTCCATAATCCTCTCCTTGATT
48770188 CCCTCCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.34, G:0.04, T:0.47
Consensus pattern (24 bp):
TCTCCATAATCCTCTCCTTGATTT
Found at i:48770193 original size:24 final size:24
Alignment explanation
Indices: 48770142--48770194 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
48770132 CCTAAAATCT
**
48770142 CTCCATAATCCTCTCCTTGATTTT
1 CTCCATAATCCTCTCCTTGATTCC
* *
48770166 CTCCCTAATCTTCTCCTTGATTCC
1 CTCCATAATCCTCTCCTTGATTCC
48770190 CTCCA
1 CTCCA
48770195 CATAACACTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.40, G:0.04, T:0.42
Consensus pattern (24 bp):
CTCCATAATCCTCTCCTTGATTCC
Found at i:48776537 original size:27 final size:27
Alignment explanation
Indices: 48776487--48776539 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
48776477 ATCATAACAC
*
48776487 AAATCAGTCATTTACCCTCGAGGGGTA
1 AAATCAGTCATTTACCCTAGAGGGGTA
*
48776514 AAAT-AGTCATTTTACCCTATAGGGGT
1 AAATCAGTCA-TTTACCCTAGAGGGGT
48776540 GTTTTGGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAGGGGTA
Found at i:48777922 original size:24 final size:24
Alignment explanation
Indices: 48777895--48777941 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48777885 TCCTAAAATC
*
48777895 TCTCCATAATCCTCTCCTTGATTT
1 TCTCCACAATCCTCTCCTTGATTT
*
48777919 TCTCCCCAATCCTCTCCTTGATT
1 TCTCCACAATCCTCTCCTTGATT
48777942 CCCTGAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.38, G:0.04, T:0.43
Consensus pattern (24 bp):
TCTCCACAATCCTCTCCTTGATTT
Found at i:48783286 original size:268 final size:252
Alignment explanation
Indices: 48782887--48783659 Score: 1190
Period size: 268 Copynumber: 3.0 Consensus size: 252
48782877 CCAAATGGTG
* * * * *
48782887 CAACGGGCACAGTGATGTTACAAGAATGTACGAGTTCGATAAGAACCAGTATAGGTATGTATGTA
1 CAACGGGCACAGTAATGTTACGAGAATGTACGAGTTCGATATGAACCAGTACAGGTATGTATATA
48782952 TGTAAATCATGTA-AAATTTGGATCTATGAATTTGTGATTCCATAATTAACTTTGTTGGTGATTA
66 TGTAAA-CATGTAGAAA-TTGGATCTATGAATTTGTGATTCCATAATTAACTTTGTTGGTGATTA
* * * *
48783016 CATGTTATGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAATTGCTCGCTTAATTATGGTT
129 CATGTTAGGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAATTACTTGCTTAATTGTGGTT
* *
48783081 TATTGGTAAGTTATATTTGCAGTTATACAAACTTACTAAGCCTAATTGCTTACTATGTT
194 GATTGGTAAGTTATATTTGCAGTTATACAAACTTACTAAGCCTAATTGCTTACTTTGTT
*
48783140 CAACGGGCACAGTGATGTTACGAGAATGTACGAGTTCGATAT-AGACCAGTACAAGTATGTATGT
1 CAACGGGCACAGTAATGTTACGAGAATGTACGAGTTCGATATGA-ACCAGTAC-AG---GTATGT
*
48783204 ATGTATGTAAATCATGTAGAAATTGGATCTATGAAATTTCTATGAATTTGTGATTCCATAATTAA
61 ATATATGTAAA-CATGTAGAAATT-G------G--A--TCTATGAATTTGTGATTCCATAATTAA
*
48783269 CTTTGTTGGAGATTACATGTTAGGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAATTACT
114 CTTTGTTGGTGATTACATGTTAGGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAATTACT
*
48783334 TGCTTAATTGTGGTTGATTGGTCAGTTATATTTGCAGTTATACAAACTTACTAAGCCTAATTGCT
179 TGCTTAATTGTGGTTGATTGGTAAGTTATATTTGCAGTTATACAAACTTACTAAGCCTAATTGCT
48783399 TACTTTGTT
244 TACTTTGTT
48783408 CAACGGGCACAGTAATGTTACGAGAATGTACGAGTTCGATATGAACCAGTACAGGTATGTATATA
1 CAACGGGCACAGTAATGTTACGAGAATGTACGAGTTCGATATGAACCAGTACAGGTATGTATATA
*
48783473 TGTAAACATGTAGAAATTGGATCTATGAATTTGTGATTTCATAATTAACTTTGTTGGTGATTACA
66 TGTAAACATGTAGAAATTGGATCTATGAATTTGTGATTCCATAATTAACTTTGTTGGTGATTACA
*
48783538 TGTTAGGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAAATACTTGCTTAATTGTGGTTGA
131 TGTTAGGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAATTACTTGCTTAATTGTGGTTGA
* *
48783603 TTGGTAATTTATATTTGCAGTTATACGAACTTACTAAGCCTAATTGCTTACTTTGTT
196 TTGGTAAGTTATATTTGCAGTTATACAAACTTACTAAGCCTAATTGCTTACTTTGTT
48783660 TACTTTTCCA
Statistics
Matches: 483, Mismatches: 19, Indels: 37
0.90 0.04 0.07
Matches are distributed among these distances:
252 161 0.33
253 47 0.10
254 3 0.01
256 1 0.00
257 26 0.05
258 4 0.01
262 1 0.00
263 12 0.02
264 17 0.04
266 1 0.00
267 2 0.00
268 207 0.43
269 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (252 bp):
CAACGGGCACAGTAATGTTACGAGAATGTACGAGTTCGATATGAACCAGTACAGGTATGTATATA
TGTAAACATGTAGAAATTGGATCTATGAATTTGTGATTCCATAATTAACTTTGTTGGTGATTACA
TGTTAGGTTAATGAGACTAAATTGAGTTGCATTATAATTTAAATTACTTGCTTAATTGTGGTTGA
TTGGTAAGTTATATTTGCAGTTATACAAACTTACTAAGCCTAATTGCTTACTTTGTT
Found at i:48785346 original size:43 final size:38
Alignment explanation
Indices: 48785299--48785390 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 38
48785289 TCGATTAACC
* *
48785299 ATGCCAATGTCTCAGACATGGTTTTATACGTAATCTAAATACA
1 ATGCCAATGTCCCAGACATGG-TCT-TAC---ATCTAAATACA
* *
48785342 ATGCCAATGCCCCAGACATGGTCTTACATGTAAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATCTAAATACA
48785380 ATGCCAATGTC
1 ATGCCAATGTC
48785391 ATAACATTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 20 0.45
41 3 0.07
42 2 0.05
43 19 0.43
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (38 bp):
ATGCCAATGTCCCAGACATGGTCTTACATCTAAATACA
Found at i:48787204 original size:23 final size:23
Alignment explanation
Indices: 48787178--48787222 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48787168 CACTTAGTTC
* *
48787178 AGTCTAATACAAAGGTGTTCGAT
1 AGTCCAATACAAAGGTGCTCGAT
*
48787201 AGTCCAATACGAAGGTGCTCGA
1 AGTCCAATACAAAGGTGCTCGA
48787223 CATTTCCGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (23 bp):
AGTCCAATACAAAGGTGCTCGAT
Done.